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comprna/reorientexpress: first release

angelrure; Akanksha2511; Eduardo Eyras


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  <dc:creator>angelrure</dc:creator>
  <dc:creator>Akanksha2511</dc:creator>
  <dc:creator>Eduardo Eyras</dc:creator>
  <dc:date>2019-11-05</dc:date>
  <dc:description>This is the first release of ReorientExpress, a program to create, test and apply models to predict the 5'-to-3' orientation of long-reads from cDNA sequencing with Nanopore or PacBio using deep neural networks for samples without a genome or a transcriptome reference. ReorientExpress implements two Deep Neural Network models: a Multi-Layer Perceptron (MLP) and a Convolutional Neural Network (CNN), and it uses as training input a transcriptome annotation from any species or any other fasta/fasq file of RNA/cDNA sequences for which the orientation is known. Training or testing data can thus be experimental data, annotation data or also mapped reads (providing the corresponding PAF file).</dc:description>
  <dc:identifier>https://zenodo.org/record/3528433</dc:identifier>
  <dc:identifier>10.5281/zenodo.3528433</dc:identifier>
  <dc:identifier>oai:zenodo.org:3528433</dc:identifier>
  <dc:relation>url:https://github.com/comprna/reorientexpress/tree/v1.0.0</dc:relation>
  <dc:relation>doi:10.5281/zenodo.3528432</dc:relation>
  <dc:rights>info:eu-repo/semantics/openAccess</dc:rights>
  <dc:title>comprna/reorientexpress: first release</dc:title>
  <dc:type>info:eu-repo/semantics/other</dc:type>
  <dc:type>software</dc:type>
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